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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGATGATTGATCATGAACAGCGAAAATTAAGATTAATAGATTGGGGGCTTGCTGAATTCTATCATCCCGGAAAAGAGTATAACGTGCGCGTTGCGTCTAGgtcagcacgcatcattcctgaatgcatcatcacaaaacttttctctgtacgctcttctagtttttttaaattcactttttaacacttgacttgaatcgtt...

Basic information

species Physcomitrella patens
transcript PP1S165_107V6.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S165_107V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: GLYMA05G22320.1 (Glycine max), 5'ss of exon 4
TGATGATTGATCATGAACAGCGAAAATTAAGATTAATAGATTGGGGGCTTGCTGAATTCTATCATCCCGGAAAAGAGTATAACGTGCGCGTTGCGTCTAGgtcagcacgcatcattcctgaatgcatcatcacaaaacttttctctgtacgctcttctagtttttttaaattcactttttaacacttgacttgaatcgtt-----
| |||||||||||||| ||||| ||  |  |  | ||||||||||||||||| || ||||||||||| || ||||| ||||| || ||||| || || ||||      || || |   |   |   |  |        |||| |  |   |       ||  ||  ||| |    |        ||||    ||||| ||     
TAATGATTGATCATGAGCAGCGTAAGCTTCGCCTTATAGATTGGGGGCTTGCAGAGTTCTATCATCCTGGGAAAGAATATAATGTTCGCGTGGCATCAAGgtatatttgc-tcttatgtctcttttttttttgttttttttttttggggtgggggaggaggattcataattgaggt----gggccttggggggaatcattaggag

upper sequence: PP1S165_107V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: GLYMA01G39950.1 (Glycine max), 5'ss of exon 4
TGATGATTGATCATGAACAGCGAAAATTAAGATTAATAGATTGGGGGCTTGCTGAATTCTATCATCCCGGAAAAGAGTATAACGTGCGCGTTGCGTCTAGgtcagcacgcatcattcctgaatgcatcatcacaaaacttttctctgtacgctcttctagtttttttaaattcactttttaacacttgacttgaatcgtt-------------
| ||||| ||||||||    |||||| |  | || ||||||||||| ||||||||||| |||||||| ||||| || ||||| || || || || || ||||    ||   ||  |   ||||  | |||           | ||      |   | |    |    ||    |  |  ||  |  |||||| ||| |               
TTATGATAGATCATGAGTTACGAAAACTTCGCTTGATAGATTGGGGTCTTGCTGAATTTTATCATCCTGGAAAGGAATATAATGTTCGTGTGGCTTCAAGgt----actgttctctgacgaataaaccatag---------tttcaaagaacaggtgtgaaatacaaaagactaaatggtagtatgtgacttaaattgaaaccaataaggccc

upper sequence: PP1S165_107V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: GLYMA11G05340.2 (Glycine max), 5'ss of exon 4
TGATGATTGATCATGAACAGCGAAAATTAAGATTAATAGATTGGGGGCTTGCTGAATTCTATCATCCCGGAAAAGAGTATAACGTGCGCGTTGCGTCTAGgtcagcacgcatcattcctgaatgcatcatcacaaaacttttctctg---tacgctcttctagtttttttaaattcact-ttttaacacttgacttgaatcgtt
| ||||| ||||||||    |||||| |  | || ||||||||||| ||||||||||| |||||||| ||||| || ||||| || || || || || ||||        ||      | ||  |||  |  ||||  ||   | ||   |||      |||  |   | |||| ||       ||    | |   |||     
TCATGATAGATCATGAGTTACGAAAACTTCGCTTGATAGATTGGGGTCTTGCTGAATTTTATCATCCTGGAAAGGAATATAATGTCCGTGTGGCTTCAAGgtactgttctatggccaataaac-catagtttcaaagattgggtgtgaaatacaaaagactaaatgagtgaaatacaaaaccccaatctatcaagcgaaaa---

upper sequence: PP1S165_107V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: GLYMA17G17520.2 (Glycine max), 5'ss of exon 4
TGATGATTGATCATGAACAGCGAAAATTAAGATTAATAGATTGGGGGCTTGCTGAATTCTATCATCCCGGAAAAGAGTATAACGTGCGCGTTGCGTCTAGgtcagcacgcatcattcctgaatgcatcatcacaaaacttttctctgtacgctcttctagtttttttaaattcactttttaacacttgacttgaatcgtt-------
| |||||||||||||| ||||| ||  |  |  | ||||||||||||||||| || ||||||||||| || ||||| ||||| || || || || || ||||   ||    |   || |  |||  || |        |||| |  | | ||              |  ||        |    ||||    |||||          
TAATGATTGATCATGAGCAGCGTAAGCTTCGCCTTATAGATTGGGGGCTTGCAGAGTTCTATCATCCTGGGAAAGAATATAATGTTCGTGTGGCATCAAGgt--acat---ttgctctt--atgtctcttttttttgttttttttgggaagcaggggggaggacgattcataattgaggtgggccttggggggaatcacgaggaggg

upper sequence: PP1S165_107V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: GLYMA05G22250.1 (Glycine max), 5'ss of exon 4
TGATGATTGATCATGAACAGCGAAAATTAAGATTAATAGATTGGGGGCTTGCTGAATTCTATCATCCCGGAAAAGAGTATAACGTGCGCGTTGCGTCTAGgtcagcacgcatcattcctgaatgca--tcatcacaaa-acttttctctgtacgctcttctagtttttttaaattcactttttaacacttgacttgaatcgtt
| ||||| |||||||||   || ||| |  | || ||||||||||| ||||||||||| |||||||| ||||| || || || || || || || || |||| |     |   | ||  | ||     | | ||  |   |   ||| | ||   |    || |    | |||   |  | |  ||| | ||   |  |    
TTATGATAGATCATGAATTACGGAAACTCCGCTTGATAGATTGGGGTCTTGCTGAATTTTATCATCCTGGAAAGGAATACAATGTTCGTGTGGCTTCAAGgt-aatgttctggactctggcatattattgaccatgatcgcaactctttctaaagtaaaatactaaaatcaaaggaagatgtatacaatggatgagcctga--

upper sequence: PP1S165_107V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: GLYMA17G17790.1 (Glycine max), 5'ss of exon 4
TGATGATTGATCATGAACAGCGAAAATTAAGATTAATAGATTGGGGGCTTGCTGAATTCTATCATCCCGGAAAAGAGTATAACGTGCGCGTTGCGTCTAGgtcagcacgcatcattcctgaatgcatcatcacaaaacttttctctgtacgctcttctagtttttttaaattcactttttaacacttgacttgaatcgtt----
| ||||| |||||||||   || ||| |  | || ||||||||||| ||||||||||| |||||||| ||||| || || || || || || || || |||| |    |      ||        || ||   |  |   ||     ||   |     |||    | |||   |  | |  ||| | || | |  |   |    
TTATGATAGATCATGAATTACGGAAACTTCGCTTGATAGATTGGGGTCTTGCTGAATTTTATCATCCTGGAAAGGAATACAATGTTCGTGTGGCTTCAAGgtaa---tgttctggtctctggcctattattg-accatggttgcaactatatttcaaaagtaaaatcaaagaaagatgtatacaatggattagcctgagttacg

upper sequence: PP1S165_107V6.1 (Physcomitrella patens), 5'ss of exon 4
lower sequence: Vv18s0001g09320.t01 (Vitis vinifera), 5'ss of exon 4
TGATGATTGATCATGAACAGCGAAAATTAAGATTAATAGATTGGGGGCTTGCTGAATTCTATCATCCCGGAAAAGAGTATAACGTGCGCGTTGCGTCTAGgtcagcacgcatca-ttcct-gaatgcatcatcacaaaacttttctctgtacgctcttctagtttttttaaattcactttttaacacttgacttgaatcgtt--
| |||||||||||||| |  || ||| |  | || ||||||||||| |||||||||||||||||||| || || || || || || || ||||| || ||||  |     || | ||||| | || | | ||||    || |     | ||   || | |  | |  | | | | |   | |    |||   |  ||  |||  
TTATGATTGATCATGAGCTTCGCAAACTTCGCTTGATAGATTGGGGTCTTGCTGAATTCTATCATCCAGGGAAGGAATACAATGTTCGAGTTGCTTCAAGgtgtgtctttataaattcctaggatccttaatcaattcacatggtgtt-tagtttcctattatatcctcacactaaaggtctt---cttttttaaaaatgtttt

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|22133106|gb|BQ827548.1|BQ827548
EST:     GCTGAATTCTATCATCCCGGAAAAGAGTATAACGTGCGCGTTGCGTCTAG                         GTACTTTAAGGGCCCA
genomic: GCTGAATTCTATCATCCCGGAAAAGAGTATAACGTGCGCGTTGCGTCTAGgtcagcacgc ... cgtgaatcagGTACTTTAAGGGCCCA